Space data lost to whale-oil shortage

March 26, 2010

The satellite soared over Earth in a polar orbit every 108 minutes, taking pictures of cloud cover and measuring heat radiated from the planet’s surface, and creating a photo mosaic of the globe 43 years ago. The resulting image is the oldest and most detailed from NASA’s Earth-observing satellites. It’s also the latest success story [...]

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Is 华大基因 doing science?
     (aka BGI)

March 18, 2010

In a decade, the global Human Genome Project sequenced 3 billion DNA base pairs. Today, a single machine (the Illumina HiSeq™ 2000) can sequence 25 billion base pairs per day, and BGI (the Shenzhen company formerly known as the Beijing Genomics Institute) has purchased 128 of them. This puts BGI “on track to surpass [...]

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Learning Bioinformatics

March 12, 2010

Bioinformatics is huge, growing, fast, and has a surprising range of applications to molecular systems engineering. Here’s a PLoS article: “A Quick Guide for Developing Effective Bioinformatics Programming Skills”. From the abstract:
Successful adoption of these principals will serve both beginner and experienced bioinformaticians alike in career development and pursuit of professional and scientific goals.

[...]

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The molecular approach
to atomically precise fabrication

March 12, 2010

A few days ago, I wrote a brief sketch of the status and paths forward in the molecular approach to atomically precise fabrication. It offers a sampling, not a full picture:

 

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Ribo-Q1: Genetic manufacturing expanded

March 1, 2010

All ribosomes read genetic data as three-letter words that encode 20 standard amino acids (give or take a few anomalies). This is equally true of the ribosomes in deep-sea bacteria living at 120°C, and the ones in your thumb. This universal code has been a wall that bounds the scope of biosynthetic polypeptide engineering — [...]

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How to study for a career in nanotechnology

February 24, 2010

Students often ask me for advice on how to study for a career in nanotechnology, and as you might imagine, providing a good answer is challenging. “Nanotechnology” refers to a notoriously broad range of areas of science and technology, and progress during a student’s career will open new areas, and some are yet to be [...]

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Chemists deserve more credit:
Atoms, Einstein, and the Matthew Effect

February 17, 2010

Chemists understood the atomic structure of molecules in the 1800s, yet many say that Einstein established the existence of atoms in a paper on Brownian motion, “Die von der Molekularkinetischen Theorie der Wärme Gefordete Bewegung von in ruhenden Flüssigkeiten Suspendierten Teilchen”, published in 1905.
This is perverse, and has seemed strange to me ever since [...]

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Cell-free synthetic biology

February 12, 2010

Synthetic biology doesn’t require cells, and in several ways, cells are liabilities.
Cells can make engineering difficult. Cell membranes and bacterial walls stand between new genes and the machinery needed to transcribe and translate them. They are barriers to liberating gene products. They contain systems that are complex products of eons of evolutionary history, not systems [...]

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Exploiting strong, covalent bonds
for self assembly of robust nanosystems

February 6, 2010

Atomically precise self-assembly of complex structures can be engineered by providing for multiple binding interactions that

Cooperate to stabilize the correct configuration, in a thermodynamic sense, and

Do not stabilize any other configuration, in a kinetic sense

Roughly speaking, in the correct configuration, the parts fit together to allow all the binding interactions to operate simultaneously, and the [...]

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Self assembly and nanomachines:
Complexity, motion, and computational control

January 28, 2010

A commenter on the previous post raised several important issues, and my reply grew into this post. The comment is here, and my reply follows:

 

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Self-assembling nanostructures:
Building the building blocks

January 25, 2010

This post is prompted by a set of interrelated advances in chemistry that hold great promise for advancing the art of atomically precise fabrication. In this post, I’ll describe an emerging class of modular synthesis methods for making a diverse set of small, complex molecular building blocks.
The road to complex self-assembled nanosystems starts with stable [...]

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Boronate esters, Suzuki coupling,
self-assembly, design software, etc.

January 24, 2010

I’ve been exploring some recent developments in chemical synthesis and self-assembly that suggest attractive possibilities for engineering robust self-assembling molecular systems. Boronate esters are involved in two ways.
Two days ago, I sat down to write about this, but then I read further into the literature, and learned substantially more. Yesterday, another cycle of the [...]

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